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Specific LTR-Retrotransposons Show Copy Number Variations between Wild and Cultivated Sunflowers.
Genes (Basel). 2018 Aug 29; 9(9)G

Abstract

The relationship between variation of the repetitive component of the genome and domestication in plant species is not fully understood. In previous work, variations in the abundance and proximity to genes of long terminal repeats (LTR)-retrotransposons of sunflower (Helianthus annuus L.) were investigated by Illumina DNA sequencingtocompare cultivars and wild accessions. In this study, we annotated and characterized 22 specific retrotransposon families whose abundance varies between domesticated and wild genotypes. These families mostly belonged to the Chromovirus lineage of the Gypsy superfamily and were distributed overall chromosomes. They were also analyzed in respect to their proximity to genes. Genes close to retrotransposon were classified according to biochemical pathways, and differences between domesticated and wild genotypes are shown. These data suggest that structural variations related to retrotransposons might have occurred to produce phenotypic variation between wild and domesticated genotypes, possibly by affecting the expression of genes that lie close to inserted or deleted retrotransposons and belong to specific biochemical pathways as those involved in plant stress responses.

Authors+Show Affiliations

Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Via del Borghetto 80, I-56124 Pisa, Italy. flavia.mascagni@unipi.it.Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Via del Borghetto 80, I-56124 Pisa, Italy. albertovangelisti@libero.it.Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Via del Borghetto 80, I-56124 Pisa, Italy. tommaso.giordani@unipi.it.Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Via del Borghetto 80, I-56124 Pisa, Italy. andrea.cavallini@unipi.it.Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Via del Borghetto 80, I-56124 Pisa, Italy. lucia.natali@unipi.it.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

30158460

Citation

Mascagni, Flavia, et al. "Specific LTR-Retrotransposons Show Copy Number Variations Between Wild and Cultivated Sunflowers." Genes, vol. 9, no. 9, 2018.
Mascagni F, Vangelisti A, Giordani T, et al. Specific LTR-Retrotransposons Show Copy Number Variations between Wild and Cultivated Sunflowers. Genes (Basel). 2018;9(9).
Mascagni, F., Vangelisti, A., Giordani, T., Cavallini, A., & Natali, L. (2018). Specific LTR-Retrotransposons Show Copy Number Variations between Wild and Cultivated Sunflowers. Genes, 9(9). https://doi.org/10.3390/genes9090433
Mascagni F, et al. Specific LTR-Retrotransposons Show Copy Number Variations Between Wild and Cultivated Sunflowers. Genes (Basel). 2018 Aug 29;9(9) PubMed PMID: 30158460.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Specific LTR-Retrotransposons Show Copy Number Variations between Wild and Cultivated Sunflowers. AU - Mascagni,Flavia, AU - Vangelisti,Alberto, AU - Giordani,Tommaso, AU - Cavallini,Andrea, AU - Natali,Lucia, Y1 - 2018/08/29/ PY - 2018/07/25/received PY - 2018/08/22/revised PY - 2018/08/24/accepted PY - 2018/8/31/entrez PY - 2018/8/31/pubmed PY - 2018/8/31/medline KW - Helianthus annuus KW - long terminal repeat retrotransposons KW - plant domestication KW - retrotransposon abundance KW - retrotransposon proximity to genes JF - Genes JO - Genes (Basel) VL - 9 IS - 9 N2 - The relationship between variation of the repetitive component of the genome and domestication in plant species is not fully understood. In previous work, variations in the abundance and proximity to genes of long terminal repeats (LTR)-retrotransposons of sunflower (Helianthus annuus L.) were investigated by Illumina DNA sequencingtocompare cultivars and wild accessions. In this study, we annotated and characterized 22 specific retrotransposon families whose abundance varies between domesticated and wild genotypes. These families mostly belonged to the Chromovirus lineage of the Gypsy superfamily and were distributed overall chromosomes. They were also analyzed in respect to their proximity to genes. Genes close to retrotransposon were classified according to biochemical pathways, and differences between domesticated and wild genotypes are shown. These data suggest that structural variations related to retrotransposons might have occurred to produce phenotypic variation between wild and domesticated genotypes, possibly by affecting the expression of genes that lie close to inserted or deleted retrotransposons and belong to specific biochemical pathways as those involved in plant stress responses. SN - 2073-4425 UR - https://www.unboundmedicine.com/medline/citation/30158460/Specific_LTR_Retrotransposons_Show_Copy_Number_Variations_between_Wild_and_Cultivated_Sunflowers_ L2 - http://www.mdpi.com/resolver?pii=genes9090433 DB - PRIME DP - Unbound Medicine ER -
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